CryoEM structure of Ku heterodimer bound to DNA, PAXX and XLF
Resolution: 2.68 Å
EM Method: Single-particle
Fitted PDBs: 7zyg
Q-score: 0.512
Seif-El-Dahan M, Kefala-Stavridi A, Frit P, Hardwick SW, Chirgadze DY, Maia De Oliviera T, Britton S, Barboule N, Bossaert M, Pandurangan AP, Meek K, Blundell TL, Ropars V, Calsou P, Charbonnier JB, Chaplin AK
Sci Adv (2023) 9 pp. eadg2834-eadg2834 [ Pubmed: 37256950 DOI: doi:10.1126/sciadv.adg2834 ]
- Phosphate ion (94 Da, Ligand)
- X-ray repair cross-complementing protein 5 (82 kDa, Protein from Homo sapiens)
- Protein paxx (21 kDa, Protein from Homo sapiens)
- X-ray repair cross-complementing protein 6 (69 kDa, Protein from Homo sapiens)
- Ku70/80 hetero dimer bound to dna, paxx and xlf (160 kDa, Cellular component from Homo sapiens)
- Dna (4 kDa, DNA from Homo sapiens)
- Dna (4 kDa, DNA from Homo sapiens)
- Non-homologous end-joining factor 1 (33 kDa, Protein from Homo sapiens)
CryoEM structure of Ku heterodimer bound to DNA and PAXX
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 7zwa
Q-score: 0.523
Seif-El-Dahan M, Kefala-Stavridi A, Frit P, Hardwick SW, Chirgadze DY, Maia De Oliviera T, Britton S, Barboule N, Bossaert M, Pandurangan AP, Meek K, Blundell TL, Ropars V, Calsou P, Charbonnier JB, Chaplin AK
Sci Adv (2023) 9 pp. eadg2834-eadg2834 [ Pubmed: 37256950 DOI: doi:10.1126/sciadv.adg2834 ]
- Phosphate ion (94 Da, Ligand)
- Ku70/80 heterodimer bound to dna and paxx (150 kDa, Cellular component from Homo sapiens)
- Dna (5'-d(p*gp*ap*tp*cp*cp*cp*tp*cp*tp*ap*gp*ap*tp*ap*t)-3') (4 kDa, DNA from Homo sapiens)
- Protein paxx (21 kDa, Protein from Homo sapiens)
- X-ray repair cross-complementing protein 6 (69 kDa, Protein from Homo sapiens)
- X-ray repair cross-complementing protein 5 (82 kDa, Protein from Homo sapiens)
- Dna (5'-d(p*cp*gp*ap*tp*ap*tp*cp*tp*ap*gp*ap*gp*gp*gp*ap*tp*c)-3') (4 kDa, DNA from Homo sapiens)
CryoEM structure of Ku heterodimer bound to DNA
Resolution: 2.74 Å
EM Method: Single-particle
Fitted PDBs: 7zvt
Q-score: 0.554
Kefala Stavridi A, Gontier A, Morin V, Frit P, Ropars V, Barboule N, Racca C, Jonchhe S, Morten MJ, Andreani J, Rak A, Legrand P, Bourand-Plantefol A, Hardwick SW, Chirgadze DY, Davey P, De Oliveira TM, Rothenberg E, Britton S, Calsou P, Blundell TL, Varela PF, Chaplin AK, Charbonnier JB
Nucleic Acids Res (2023) 51 pp. 11732-11747 [ Pubmed: 37870477 DOI: doi:10.1093/nar/gkad863 ]
- Dna (5'-d(p*tp*cp*cp*cp*tp*cp*tp*ap*gp*ap*tp*ap*tp*c)-3') (4 kDa, DNA from Homo sapiens)
- Inositol hexakisphosphate (660 Da, Ligand)
- Ku70/80 heterodimer bound to dna (150 kDa, Cellular component from Homo sapiens)
- X-ray repair cross-complementing protein 6 (69 kDa, Protein from Homo sapiens)
- Dna (5'-d(p*cp*gp*ap*tp*ap*tp*cp*tp*ap*gp*ap*gp*gp*gp*ap*t)-3') (4 kDa, DNA from Homo sapiens)
- X-ray repair cross-complementing protein 5 (82 kDa, Protein from Homo sapiens)
Cryo-EM structure of Ku 70/80 bound to inositol hexakisphosphate
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 7zt6
Q-score: 0.387
Kefala Stavridi A, Gontier A, Morin V, Frit P, Ropars V, Barboule N, Racca C, Jonchhe S, Morten MJ, Andreani J, Rak A, Legrand P, Bourand-Plantefol A, Hardwick SW, Chirgadze DY, Davey P, De Oliveira TM, Rothenberg E, Britton S, Calsou P, Blundell TL, Varela PF, Chaplin AK, Charbonnier JB
Nucleic Acids Res (2023) 51 pp. 11732-11747 [ Pubmed: 37870477 DOI: doi:10.1093/nar/gkad863 ]
- Cryo-em structure of ku 70/80 bound to inositol hexakisphosphate (Complex from Homo sapiens)
- X-ray repair cross-complementing protein 6 (73 kDa, Protein from Homo sapiens)
- X-ray repair cross-complementing protein 5 (82 kDa, Protein from Homo sapiens)
- Inositol hexakisphosphate (660 Da, Ligand)
Vaccinia C16 N-terminal domains
Resolution: 3.47 Å
EM Method: Single-particle
Fitted PDBs: 8ag3
Q-score: 0.464
Rivera-Calzada A, Arribas-Bosacoma R, Ruiz-Ramos A, Escudero-Bravo P, Boskovic J, Fernandez-Leiro R, Oliver AW, Pearl LH, Llorca O
Nat Commun (2022) 13 pp. 7062-7062 [ Pubmed: 36400800 DOI: doi:10.1038/s41467-022-34843-z ]
- Protein c10 (42 kDa, Protein from Vaccinia virus Western Reserve)
- C16 n-terminal domains in the c16-ku70/ku80 complex (230 kDa, Complex from Vaccinia virus)
Vaccinia C16 protein bound to Ku70/Ku80
Resolution: 2.46 Å
EM Method: Single-particle
Fitted PDBs: 8ag4
Q-score: 0.551
Rivera-Calzada A, Arribas-Bosacoma R, Ruiz-Ramos A, Escudero-Bravo P, Boskovic J, Fernandez-Leiro R, Oliver AW, Pearl LH, Llorca O
Nat Commun (2022) 13 pp. 7062-7062 [ Pubmed: 36400800 DOI: doi:10.1038/s41467-022-34843-z ]
- X-ray repair cross-complementing protein 5 (85 kDa, Protein from Homo sapiens)
- Vaccinia c16 protein bound to ku70/ku80 (230 kDa, Complex from Homo sapiens)
- Protein c10 (42 kDa, Protein from Vaccinia virus Western Reserve)
- X-ray repair cross-complementing protein 6 (74 kDa, Protein from Homo sapiens)
Vaccinia C16 protein bound to Ku70/Ku80
Resolution: 3.47 Å
EM Method: Single-particle
Fitted PDBs: 8ag5
Q-score: 0.532
Rivera-Calzada A, Arribas-Bosacoma R, Ruiz-Ramos A, Escudero-Bravo P, Boskovic J, Fernandez-Leiro R, Oliver AW, Pearl LH, Llorca O
Nat Commun (2022) 13 pp. 7062-7062 [ Pubmed: 36400800 DOI: doi:10.1038/s41467-022-34843-z ]
- X-ray repair cross-complementing protein 5 (85 kDa, Protein from Homo sapiens)
- Ku70-xrcc6 (74 kDa, Protein from Homo sapiens)
- Vaccinia c16 protein bound to ku70/ku80 (230 kDa, Complex from Homo sapiens)
- Protein c10 (42 kDa, Protein from Vaccinia virus Western Reserve)
Gut F, Kashammer L, Lammens K, Bartho JD, Boggusch AM, van de Logt E, Kessler B, Hopfner KP
Mol Cell (2022) 82 pp. 3513-3522.e6 [ DOI: doi:10.1016/j.molcel.2022.07.019 Pubmed: 35987200 ]
C. thermophilum Ku70/80 heterodimer bound to DNA
Gut F, Kashammer L, Lammens K, Bartho JD, Boggusch AM, van de Logt E, Kessler B, Hopfner KP
Mol Cell (2022) 82 pp. 3513-3522.e6 [ DOI: doi:10.1016/j.molcel.2022.07.019 Pubmed: 35987200 ]
DNA-PK in complex with ATPgammaS
Liang S, Thomas SE, Chaplin AK, Hardwick SW, Chirgadze DY, Blundell TL
Nature (2022) 601 pp. 643-648 [ Pubmed: 34987222 DOI: doi:10.1038/s41586-021-04274-9 ]